Skip to content

Interface SPM ApplyTransform generated an error if out_file was not provided #976

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Merged
merged 1 commit into from
Oct 24, 2014
Merged

Interface SPM ApplyTransform generated an error if out_file was not provided #976

Changes from all commits
Commits
Show all changes
1 commit
Select commit
File filter

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
12 changes: 6 additions & 6 deletions nipype/interfaces/spm/utils.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -146,6 +146,8 @@ class ApplyTransform(SPMCommand):

def _make_matlab_command(self, _):
"""checks for SPM, generates script"""
outputs = self._list_outputs()
self.inputs.out_file = outputs['out_file']
script = """
infile = '%s';
outfile = '%s'
Expand All @@ -168,16 +170,14 @@ def _make_matlab_command(self, _):
def _list_outputs(self):
outputs = self.output_spec().get()
if not isdefined(self.inputs.out_file):
_, name, _ = split_filename(self.inputs.in_file)
outputs['out_file'] = os.path.abspath(name + '_trans.nii')
outputs['out_file'] = os.path.abspath(self._gen_outfilename())
else:
outputs['out_file'] = os.path.abspath(self.inputs.out_file)
return outputs

def _gen_filename(self, name):
if name == 'out_file':
return self._list_outputs()[name]
return None
def _gen_outfilename(self):
_, name, _ = split_filename(self.inputs.in_file)
return name + '_trans.nii'

class ResliceInputSpec(SPMCommandInputSpec):
in_file = File( exists = True, mandatory=True,
Expand Down